jr pass tokyo alpine kyoto

hi, I will be travel to japan using 1 week jr pass, I want to go to kyoto and alpine route from shinjuku tokyo area. Is that possible to go through alpine route in 5 hours? So, I'm thinking to go from shinjuku- alpine route-kyoto or the backwards way... kyoto-alpine route-shinjuku. What is the best options and scenery view using jr pass for my route?
please suggest, thanks